annotate VCF files for poly repeats
meta:map
Groovy Map containing VCF information
vcf:file
Groovy Map containing reference genome information for vcf
*.{vcf,bcf,vcf.gz,bcf.gz}
meta2:map
Groovy Map containing fasta information
fasta:file
Groovy Map containing reference genome information for fai reference fasta file
*.fasta
meta3:map
Groovy Map containing fasta.fai information
fai:file
Groovy Map containing reference genome information for fai
*.fasta.fai
meta4:map
Groovy Map containing fasta.dict information
dict:file
Groovy Map containing reference genome information for GATK sequence dictionary
*.dict
vcf
Groovy Map containing VCF information e.g. [ id:‘test’, single_end:false ]
*.${extension}:file
VCF filtered output file
tbi
*.tbi:file
Alternative VCF file index
*.tbi
csi
*.csi:file
Default VCF file index
*.csi
versions
versions.yml:file
File containing software versions
versions.yml
Java utilities for Bioinformatics.
View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF
